Evidence map›Paper›PMID 40748072›Full record

ArticleJournal of bacteriology2025

Identifying essential genes in

Joseph K Bedree, Jacob Bourgeois, Pooja Balani, Lujia Cen, Erik L Hendrickson, Kristopher A Kerns, Andrew Camilli, Jeffrey S McLean, Wenyuan Shi, Xuesong He

Abstract read
In one paragraph

Article in Journal of bacteriology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed.

  1. Article
  2. A host-encoded prophage targets a Candidate Phyla Radiation bacterium and shapes episymbiotic interactions.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  3. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Joseph K BedreeSection of Oral Biology, Division of Oral Biology and Medicine, School of Dentistry, University of California-Los Angeles, Los Angeles, California, USA.ORCID 0000-0002-3822-649X
Jacob BourgeoisDepartment of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts, USA.ORCID 0000-0002-8947-3044
Pooja BalaniDepartment of Microbiology, ADA Forsyth Institute, Somerville, Massachusetts, USA.ORCID 0000-0002-6544-8696
Lujia CenDepartment of Microbiology, ADA Forsyth Institute, Somerville, Massachusetts, USA.ORCID 0000-0001-5982-1290
Erik L HendricksonDepartment of Periodontics, School of Dentistry, University of Washington, Seattle, Washington, USA.ORCID 0000-0002-7370-6253
Kristopher A KernsDepartment of Periodontics, School of Dentistry, University of Washington, Seattle, Washington, USA.ORCID 0000-0002-4380-0062
Andrew CamilliDepartment of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts, USA.ORCID 0000-0002-1521-5894
Jeffrey S McLeanDepartment of Periodontics, School of Dentistry, University of Washington, Seattle, Washington, USA.ORCID 0000-0001-9934-5137
Wenyuan ShiDepartment of Microbiology, ADA Forsyth Institute, Somerville, Massachusetts, USA.ORCID 0000-0003-2435-9256
Xuesong HeDepartment of Microbiology, ADA Forsyth Institute, Somerville, Massachusetts, USA.ORCID 0000-0002-3333-9188

Funding

NCCIH Supplement to NCATS/CTSA Program for KL2 Scholars - M. SoddersKL2TR002317 · NCATS · UNIVERSITY OF WASHINGTON · PI Christy Michelle McKinney · 2017 to 2026
$14.5M
Domestication and characterization of TM7-the most elusive oral phylumR01DE023810 · NIDCR · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Xuesong He, Jeffrey Scott McLean · 2014 to 2026
$6.6M
Preventing dental caries through targeted treatment of acid-producing bacteriaR01DE029479 · NIDCR · ADA FORSYTH INSTITUTE, INC. · PI HE, XUESONG, SUN, JIRUN · 2021 to 2025
$3.7M
Host tRNA-derived small RNAs (tsRNAs) mediate interactions between host and oral microbesR01DE030943 · NIDCR · ADA FORSYTH INSTITUTE, INC. · PI Xuesong He · 2022 to 2026
$2.4M
Shedding Light on Microbial Dark MatterF31DE026057 · NIDCR · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI BEDREE, JOSEPH KERNAN · 2016 to 2020
$156k
NCATS NIH HHS KL2 TR002317NIDCR NIH HHS F31 DE026057NIDCR NIH HHS R01 DE023810NIDCR NIH HHS R01 DE029479NIDCR NIH HHS R01 DE030943NIH HHS F31DE026057NIH HHS KL2TR002317NIH HHS R01DE023810NIH HHS R01DE029479NIH HHS R01DE030943
6 · The paper itself

Abstract

The unique epibiotic-parasitic relationship between

Indexed as

DNA Transposable ElementsGenes, EssentialGene LibraryMutagenesis, InsertionalDNA Transposable ElementsactinomycetesgingivitismicrobiomeNanosynbacteroral microbiomeperiodontitisSaccharibacteriaTM7xTn-seq

Identifiers

PMID40748072
PMCPMC12369343

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.